{"id":"https://openalex.org/W4223519683","doi":"https://doi.org/10.3390/e24040536","title":"RNA World Modeling: A Comparison of Two Complementary Approaches","display_name":"RNA World Modeling: A Comparison of Two Complementary Approaches","publication_year":2022,"publication_date":"2022-04-11","ids":{"openalex":"https://openalex.org/W4223519683","doi":"https://doi.org/10.3390/e24040536","pmid":"https://pubmed.ncbi.nlm.nih.gov/35455198"},"language":"en","primary_location":{"id":"doi:10.3390/e24040536","is_oa":true,"landing_page_url":"https://doi.org/10.3390/e24040536","pdf_url":"https://www.mdpi.com/1099-4300/24/4/536/pdf?version=1649746496","source":{"id":"https://openalex.org/S195231649","display_name":"Entropy","issn_l":"1099-4300","issn":["1099-4300"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310310987","host_organization_name":"Multidisciplinary Digital Publishing Institute","host_organization_lineage":["https://openalex.org/P4310310987"],"host_organization_lineage_names":["Multidisciplinary Digital Publishing Institute"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Entropy","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://www.mdpi.com/1099-4300/24/4/536/pdf?version=1649746496","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5081914976","display_name":"Jaroslaw Synak","orcid":"https://orcid.org/0000-0002-9887-849X"},"institutions":[{"id":"https://openalex.org/I46597724","display_name":"Pozna\u0144 University of Technology","ror":"https://ror.org/00p7p3302","country_code":"PL","type":"education","lineage":["https://openalex.org/I46597724"]}],"countries":["PL"],"is_corresponding":false,"raw_author_name":"Jaroslaw Synak","raw_affiliation_strings":["European Center for Bioinformatics and Genomics, 60-965 Poznan, Poland","Institute of Computing Science, Poznan University of Technology, 60-965 Poznan, Poland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"European Center for Bioinformatics and Genomics, 60-965 Poznan, Poland","institution_ids":[]},{"raw_affiliation_string":"Institute of Computing Science, Poznan University of Technology, 60-965 Poznan, Poland","institution_ids":["https://openalex.org/I46597724"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5027621077","display_name":"Agnieszka Rybarczyk","orcid":"https://orcid.org/0000-0003-4115-0737"},"institutions":[{"id":"https://openalex.org/I4210152414","display_name":"Institute of Bioorganic Chemistry, Polish Academy of Sciences","ror":"https://ror.org/04ejdtr48","country_code":"PL","type":"facility","lineage":["https://openalex.org/I4210152414","https://openalex.org/I99542240"]},{"id":"https://openalex.org/I46597724","display_name":"Pozna\u0144 University of Technology","ror":"https://ror.org/00p7p3302","country_code":"PL","type":"education","lineage":["https://openalex.org/I46597724"]}],"countries":["PL"],"is_corresponding":true,"raw_author_name":"Agnieszka Rybarczyk","raw_affiliation_strings":["European Center for Bioinformatics and Genomics, 60-965 Poznan, Poland","Institute of Bioorganic Chemistry, Polish Academy of Sciences, 61-704 Poznan, Poland","Institute of Computing Science, Poznan University of Technology, 60-965 Poznan, Poland"],"raw_orcid":"https://orcid.org/0000-0003-4115-0737","affiliations":[{"raw_affiliation_string":"European Center for Bioinformatics and Genomics, 60-965 Poznan, Poland","institution_ids":[]},{"raw_affiliation_string":"Institute of Bioorganic Chemistry, Polish Academy of Sciences, 61-704 Poznan, Poland","institution_ids":["https://openalex.org/I4210152414"]},{"raw_affiliation_string":"Institute of Computing Science, Poznan University of Technology, 60-965 Poznan, Poland","institution_ids":["https://openalex.org/I46597724"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5024504556","display_name":"Jacek B\u0142a\u017cewicz","orcid":"https://orcid.org/0000-0001-8326-1094"},"institutions":[{"id":"https://openalex.org/I4210152414","display_name":"Institute of Bioorganic Chemistry, Polish Academy of Sciences","ror":"https://ror.org/04ejdtr48","country_code":"PL","type":"facility","lineage":["https://openalex.org/I4210152414","https://openalex.org/I99542240"]},{"id":"https://openalex.org/I46597724","display_name":"Pozna\u0144 University of Technology","ror":"https://ror.org/00p7p3302","country_code":"PL","type":"education","lineage":["https://openalex.org/I46597724"]}],"countries":["PL"],"is_corresponding":true,"raw_author_name":"Jacek Blazewicz","raw_affiliation_strings":["European Center for Bioinformatics and Genomics, 60-965 Poznan, Poland","Institute of Bioorganic Chemistry, Polish Academy of Sciences, 61-704 Poznan, Poland","Institute of Computing Science, Poznan University of Technology, 60-965 Poznan, Poland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"European Center for Bioinformatics and Genomics, 60-965 Poznan, Poland","institution_ids":[]},{"raw_affiliation_string":"Institute of Bioorganic Chemistry, Polish Academy of Sciences, 61-704 Poznan, Poland","institution_ids":["https://openalex.org/I4210152414"]},{"raw_affiliation_string":"Institute of Computing Science, Poznan University of Technology, 60-965 Poznan, Poland","institution_ids":["https://openalex.org/I46597724"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5024504556","https://openalex.org/A5027621077"],"corresponding_institution_ids":["https://openalex.org/I4210152414","https://openalex.org/I46597724"],"apc_list":{"value":2000,"currency":"CHF","value_usd":2227},"apc_paid":{"value":2000,"currency":"CHF","value_usd":2227},"fwci":0.2638,"has_fulltext":true,"cited_by_count":2,"citation_normalized_percentile":{"value":0.58240255,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":94,"max":96},"biblio":{"volume":"24","issue":"4","first_page":"536","last_page":"536"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11445","display_name":"Origins and Evolution of Life","score":0.9994999766349792,"subfield":{"id":"https://openalex.org/subfields/3103","display_name":"Astronomy and Astrophysics"},"field":{"id":"https://openalex.org/fields/31","display_name":"Physics and Astronomy"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},"topics":[{"id":"https://openalex.org/T11445","display_name":"Origins and Evolution of Life","score":0.9994999766349792,"subfield":{"id":"https://openalex.org/subfields/3103","display_name":"Astronomy and Astrophysics"},"field":{"id":"https://openalex.org/fields/31","display_name":"Physics and Astronomy"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T11764","display_name":"Evolution and Genetic Dynamics","score":0.9988999962806702,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T11252","display_name":"Evolutionary Game Theory and Cooperation","score":0.9929999709129333,"subfield":{"id":"https://openalex.org/subfields/3312","display_name":"Sociology and Political Science"},"field":{"id":"https://openalex.org/fields/33","display_name":"Social Sciences"},"domain":{"id":"https://openalex.org/domains/2","display_name":"Social Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/rna","display_name":"RNA","score":0.6991322636604309},{"id":"https://openalex.org/keywords/rna-world-hypothesis","display_name":"RNA world hypothesis","score":0.6541520357131958},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.49860525131225586},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.4728044867515564},{"id":"https://openalex.org/keywords/population","display_name":"Population","score":0.46968701481819153},{"id":"https://openalex.org/keywords/replication","display_name":"Replication (statistics)","score":0.45633333921432495},{"id":"https://openalex.org/keywords/complex-system","display_name":"Complex system","score":0.42241668701171875},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.3650825619697571},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.25964611768722534},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.24794438481330872},{"id":"https://openalex.org/keywords/ribozyme","display_name":"Ribozyme","score":0.22730547189712524},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.1280529797077179}],"concepts":[{"id":"https://openalex.org/C67705224","wikidata":"https://www.wikidata.org/wiki/Q11053","display_name":"RNA","level":3,"score":0.6991322636604309},{"id":"https://openalex.org/C155242204","wikidata":"https://www.wikidata.org/wiki/Q407525","display_name":"RNA world hypothesis","level":5,"score":0.6541520357131958},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.49860525131225586},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4728044867515564},{"id":"https://openalex.org/C2908647359","wikidata":"https://www.wikidata.org/wiki/Q2625603","display_name":"Population","level":2,"score":0.46968701481819153},{"id":"https://openalex.org/C12590798","wikidata":"https://www.wikidata.org/wiki/Q3933199","display_name":"Replication (statistics)","level":2,"score":0.45633333921432495},{"id":"https://openalex.org/C47822265","wikidata":"https://www.wikidata.org/wiki/Q854457","display_name":"Complex system","level":2,"score":0.42241668701171875},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.3650825619697571},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.25964611768722534},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.24794438481330872},{"id":"https://openalex.org/C76346623","wikidata":"https://www.wikidata.org/wiki/Q205858","display_name":"Ribozyme","level":4,"score":0.22730547189712524},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.1280529797077179},{"id":"https://openalex.org/C149923435","wikidata":"https://www.wikidata.org/wiki/Q37732","display_name":"Demography","level":1,"score":0.0},{"id":"https://openalex.org/C159047783","wikidata":"https://www.wikidata.org/wiki/Q7215","display_name":"Virology","level":1,"score":0.0},{"id":"https://openalex.org/C144024400","wikidata":"https://www.wikidata.org/wiki/Q21201","display_name":"Sociology","level":0,"score":0.0}],"mesh":[],"locations_count":5,"locations":[{"id":"doi:10.3390/e24040536","is_oa":true,"landing_page_url":"https://doi.org/10.3390/e24040536","pdf_url":"https://www.mdpi.com/1099-4300/24/4/536/pdf?version=1649746496","source":{"id":"https://openalex.org/S195231649","display_name":"Entropy","issn_l":"1099-4300","issn":["1099-4300"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310310987","host_organization_name":"Multidisciplinary Digital Publishing Institute","host_organization_lineage":["https://openalex.org/P4310310987"],"host_organization_lineage_names":["Multidisciplinary Digital Publishing Institute"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Entropy","raw_type":"journal-article"},{"id":"pmid:35455198","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/35455198","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Entropy (Basel, Switzerland)","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:9027272","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/9027272","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Entropy (Basel)","raw_type":"Text"},{"id":"pmh:oai:doaj.org/article:440b574dcde249859d3ca29de5bf5700","is_oa":true,"landing_page_url":"https://doaj.org/article/440b574dcde249859d3ca29de5bf5700","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Entropy, Vol 24, Iss 4, p 536 (2022)","raw_type":"article"},{"id":"pmh:oai:mdpi.com:/1099-4300/24/4/536/","is_oa":true,"landing_page_url":"https://dx.doi.org/10.3390/e24040536","pdf_url":null,"source":{"id":"https://openalex.org/S4306400947","display_name":"MDPI (MDPI AG)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I4210097602","host_organization_name":"Multidisciplinary Digital Publishing Institute (Switzerland)","host_organization_lineage":["https://openalex.org/I4210097602"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Entropy; Volume 24; Issue 4; Pages: 536","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.3390/e24040536","is_oa":true,"landing_page_url":"https://doi.org/10.3390/e24040536","pdf_url":"https://www.mdpi.com/1099-4300/24/4/536/pdf?version=1649746496","source":{"id":"https://openalex.org/S195231649","display_name":"Entropy","issn_l":"1099-4300","issn":["1099-4300"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310310987","host_organization_name":"Multidisciplinary Digital Publishing Institute","host_organization_lineage":["https://openalex.org/P4310310987"],"host_organization_lineage_names":["Multidisciplinary Digital Publishing Institute"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Entropy","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G7758401396","display_name":null,"funder_award_id":"0311/SBAD/0711","funder_id":"https://openalex.org/F4320322481","funder_display_name":"Politechnika Pozna\u0144ska"}],"funders":[{"id":"https://openalex.org/F4320322481","display_name":"Politechnika Pozna\u0144ska","ror":"https://ror.org/00p7p3302"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4223519683.pdf","grobid_xml":"https://content.openalex.org/works/W4223519683.grobid-xml"},"referenced_works_count":56,"referenced_works":["https://openalex.org/W565145897","https://openalex.org/W1500111690","https://openalex.org/W1556324230","https://openalex.org/W1586920498","https://openalex.org/W1654657067","https://openalex.org/W1939609876","https://openalex.org/W1964777250","https://openalex.org/W1981755032","https://openalex.org/W1995100932","https://openalex.org/W1995538509","https://openalex.org/W2017454755","https://openalex.org/W2020396765","https://openalex.org/W2029074613","https://openalex.org/W2046538112","https://openalex.org/W2050110866","https://openalex.org/W2058513344","https://openalex.org/W2062079296","https://openalex.org/W2066582149","https://openalex.org/W2087895317","https://openalex.org/W2093400964","https://openalex.org/W2113855133","https://openalex.org/W2114004426","https://openalex.org/W2116844639","https://openalex.org/W2130134260","https://openalex.org/W2153339171","https://openalex.org/W2168528449","https://openalex.org/W2320164531","https://openalex.org/W2562163731","https://openalex.org/W2615191080","https://openalex.org/W2622222055","https://openalex.org/W2645955722","https://openalex.org/W2735322110","https://openalex.org/W2754416383","https://openalex.org/W2760922926","https://openalex.org/W2769357715","https://openalex.org/W2803705642","https://openalex.org/W2903618117","https://openalex.org/W2918005410","https://openalex.org/W2965013049","https://openalex.org/W2970079337","https://openalex.org/W2970786047","https://openalex.org/W2971293632","https://openalex.org/W2990607988","https://openalex.org/W2993383518","https://openalex.org/W3000068290","https://openalex.org/W3000571707","https://openalex.org/W3044663019","https://openalex.org/W3082564993","https://openalex.org/W3103717532","https://openalex.org/W3125358592","https://openalex.org/W3161589253","https://openalex.org/W3192987284","https://openalex.org/W4221050487","https://openalex.org/W4255996317","https://openalex.org/W4388299828","https://openalex.org/W6629929019"],"related_works":["https://openalex.org/W2145660312","https://openalex.org/W1929212941","https://openalex.org/W4390006932","https://openalex.org/W4245682324","https://openalex.org/W2117819109","https://openalex.org/W2001190945","https://openalex.org/W2150698842","https://openalex.org/W2944808730","https://openalex.org/W4387579936","https://openalex.org/W2887384465"],"abstract_inverted_index":{"The":[0],"origin":[1],"of":[2,6,71,118,150,187],"life":[3,21],"remains":[4],"one":[5,165],"the":[7,29,37,69,104,138,148,151,167,183,188,234],"major":[8],"scientific":[9],"questions":[10,60],"in":[11,36,87],"modern":[12],"biology.":[13],"Among":[14],"many":[15,59,82,224],"hypotheses":[16],"aiming":[17],"to":[18,64,91,98,212,218],"explain":[19],"how":[20],"on":[22,103,147],"Earth":[23],"started,":[24],"RNA":[25,40,111,134],"world":[26],"is":[27,55,85,170],"probably":[28],"most":[30],"extensively":[31],"studied.":[32],"It":[33],"assumes":[34],"that,":[35],"very":[38],"beginning,":[39],"molecules":[41,73,112],"served":[42],"as":[43,47],"both":[44],"enzymes":[45,114],"and":[46,77,121,172,185,198,215],"genetic":[48,79],"information":[49,80],"carriers.":[50],"However,":[51],"even":[52],"if":[53],"this":[54,94,100,162],"true,":[56],"there":[57],"are":[58,226],"that":[61,123,181],"still":[62],"need":[63],"be":[65,131,231],"answered-for":[66],"example,":[67],"whether":[68],"population":[70],"such":[72],"could":[74],"achieve":[75],"stability":[76],"retain":[78],"for":[81,89],"generations,":[83],"which":[84,109,228],"necessary":[86],"order":[88],"evolution":[90],"start.":[92],"In":[93],"paper,":[95],"we":[96],"try":[97],"answer":[99],"question":[101],"based":[102,146],"parasite-replicase":[105],"model":[106],"(RP":[107],"model),":[108],"divides":[110],"into":[113],"(RNA":[115],"replicases)":[116],"capable":[117],"catalyzing":[119],"replication":[120],"parasites":[122],"do":[124],"not":[125,210,230],"possess":[126],"replicase":[127],"activity":[128],"but":[129],"can":[130],"replicated":[132],"by":[133,196,201],"replicases.":[135],"We":[136,159,179],"describe":[137],"aforementioned":[139],"system":[140,169,190],"using":[141,174],"partial":[142],"differential":[143],"equations":[144],"and,":[145],"analysis":[149,186],"simulation,":[152],"surmise":[153],"general":[154],"rules":[155],"governing":[156],"its":[157],"evolution.":[158],"also":[160],"compare":[161],"approach":[163],"with":[164],"where":[166,223],"RP":[168,189],"modeled":[171],"implemented":[173],"a":[175],"multi-agent":[176],"modeling":[177],"technique.":[178],"show":[180],"approaching":[182],"description":[184],"from":[191],"different":[192],"perspectives":[193],"(microscopic":[194],"represented":[195],"MAS":[197,208],"macroscopic":[199],"depicted":[200],"PDE)":[202],"provides":[203],"consistent":[204],"results.":[205],"Therefore,":[206],"applying":[207],"does":[209],"lead":[211],"erroneous":[213],"results":[214],"allows":[216],"us":[217],"study":[219],"more":[220],"complex":[221],"situations":[222],"cases":[225],"concerned,":[227],"would":[229],"possible":[232],"through":[233],"PDE":[235],"model.":[236]},"counts_by_year":[{"year":2024,"cited_by_count":2}],"updated_date":"2026-08-11T07:18:39.950985","created_date":"2025-10-10T00:00:00"}
